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[[Sysbio:Back Door | <font face="trebuchet ms" style="color:#bcd5bc"> '''Internal''' </font>]] &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
[[Sysbio:Back Door | <font face="trebuchet ms" style="color:#bcd5bc"> '''Internal''' </font>]] &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
[[Sysbio:Notebook/SysBio_notebook | <font face="trebuchet ms" style="color:#bcd5bc"> '''Lab Notebook''' </font>]] &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
[[Sysbio:Notebook/SysBio_notebook | <font face="trebuchet ms" style="color:#bcd5bc"> '''Lab Notebook''' </font>]] &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
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[http://sysbio.tumblr.com/ <font face="trebuchet ms" style="color:#bcd5bc"> '''Lab Blog''' </font>] &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
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[https://plus.google.com/105324148007206298526/posts <font face="trebuchet ms" style="color:#bcd5bc"> '''Lab Blog''' </font>] &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
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==Publications==
==Publications==
 +
'''2014'''
 +
* S. H. Mejías, B. Sot, R. Guantes and A. L. Cortajarena , ''[http://pubs.rsc.org/en/content/articlelanding/2014/nr/c4nr01210k#!divAbstract Controlled nanometric fibers of self-assembled designed protein scaffolds]'', Nanoscale '''6''', 10982-10988 (2014)
 +
* A. L. Sanz & D. G. Míguez, ''[http://www.landesbioscience.com/journals/neurogenesis/article/29529/ Dual R-Smads interplay in the regulation of vertebrate neurogenesis]''.  Neurogenesis '''1''', e29529 (2014).
 +
'''2013'''
'''2013'''
-
* V. Doldán-Martelli, R. Guantes and D. Gómez-Míguez, "A mathematical model for the rational design of chimeric ligands in selective drug therapies", CPT: Pharmacometrics & Systems Pharmacology, '''2''', e26 (2013).  
+
* T. Ruiz-Herrero, J. Estrada, R. Guantes, D. G. Miguez, ''[http://www.ploscompbiol.org/article/info%3Adoi%2F10.1371%2Fjournal.pcbi.1003274 A tunable coarse-grained model for ligand-receptor interaction]'', PLOS Computational Biology  '''9''', e1003274 (2013).
 +
* D. G. Míguez*, E. Gil-Guiñón, S. Pons and E. Martí ''[http://jcs.biologists.org/content/early/2013/10/08/jcs.130435.abstract Smad2 and Smad3 cooperate and antagonize simultaneously in vertebrate neurogenesis]'', Journal Of Cell Science '''126''', 5335 (2013). '''(*First and corresponding authorship)'''
 +
* M. Saade, I. Gutiérrez-Vallejo, G. Le Dréau, M. A. Rabadán, D. G. Miguez, J. Buceta, E. Martí  ''[http://www.sciencedirect.com/science/article/pii/S2211124713003306 Sonic hedgehog signaling switches the mode of division in the developing nervous system]'', Cell Reports '''4''',492 (2013).
 +
* D. G. Míguez,  ''[http://link.springer.com/article/10.1007%2Fs12539-013-0165-x Network Nonlinearities in Drug Treatment]'', Interdisciplinary Sciences: Computational Life Sciences 5,85 (2013).
 +
* P. Gregorio-Godoy, D. G. Míguez, ''[http://digital-library.theiet.org/content/journals/10.1049/iet-syb.2012.0026 Synthetic approaches to study transcriptional networks and noise in mammalian systems]'', IET Systems Biology 7,11 (2013).
 +
* V. Doldán-Martelli, R. Guantes, D. G. Míguez, ''[http://www.nature.com/psp/journal/v2/n2/full/psp20132a.html  A Mathematical Model for the Rational Design of Chimeric Ligands in Selective Drug Therapies]'', CPT: Pharmacometrics & Systems Pharmacology '''2''', e26 (2013).
 +
* J. Estrada and R. Guantes, ''[http://pubs.rsc.org/en/content/articlelanding/2013/mb/c2mb25243k#!divAbstract Dynamic and structural constraints in signal propagation by regulatory networks]'' Mol. BioSyst. '''9''', 268-284 (2013).
'''2012'''
'''2012'''
* R. Guantes, B. Cayrol, F. Busi and V. Arluison, "Positive Regulatory Dynamics by a small noncoding RNA: Speeding Up Responses Under Temperature Stress", Molecular Biosystems '''8''' , 1707-1715 (2012).  
* R. Guantes, B. Cayrol, F. Busi and V. Arluison, "Positive Regulatory Dynamics by a small noncoding RNA: Speeding Up Responses Under Temperature Stress", Molecular Biosystems '''8''' , 1707-1715 (2012).  
Line 25: Line 35:
* V. Doldán-Martelli, D. G. Míguez, ''Theoretical Approaches to Growth Hormone Signaling'', in 'Growth Hormones: Synthesis, Regulation and Health Implications', Eds. A. Andersdtr and J.  Anderssen Nova Publishers ISBN 978-1-61942-681-8 (2012).
* V. Doldán-Martelli, D. G. Míguez, ''Theoretical Approaches to Growth Hormone Signaling'', in 'Growth Hormones: Synthesis, Regulation and Health Implications', Eds. A. Andersdtr and J.  Anderssen Nova Publishers ISBN 978-1-61942-681-8 (2012).
'''2011'''
'''2011'''
-
* D. G. Míguez,  ''Network Nonlinearities in Drug Treatment'' (in press).
+
* D. G. Míguez, Milos Dolnik, Irving Epstein and Alberto P. Muñuzuri, ''[http://pre.aps.org/abstract/PRE/v84/i4/e046210 Interaction Of Chemical Patterns in Coupled Layers]'', Phys. Rev. E, '''84''', 046210 (2011).
-
* D. G. Míguez, Milos Dolnik, Irving Epstein and Alberto P. Muñuzuri, "Interaction Of Chemical Patterns in Coupled Layers", Phys. Rev. E, '''84''', 046210 (2011).
+
'''2010'''
'''2010'''
-
* D. G. Míguez, "The role of asymmetric binding in ligand-receptor systems with 1:2 interaction ratio",  Biophys Chem '''148''', 74-81 (2010)
+
* D. G. Míguez, ''[http://www.sciencedirect.com/science/article/pii/S0301462210000402 The role of asymmetric binding in ligand-receptor systems with 1:2 interaction ratio]''  Biophys Chem '''148''', 74-81 (2010)
* D.G. Míguez, "Forcing of Nonlinear Pattern Formation Systems",  Lambert Academic Publishing, ISBN 9783838364223 (2010) [http://www.amazon.com/Forcing-Nonlinear-Pattern-Formation-Systems/dp/3838364228 Book]
* D.G. Míguez, "Forcing of Nonlinear Pattern Formation Systems",  Lambert Academic Publishing, ISBN 9783838364223 (2010) [http://www.amazon.com/Forcing-Nonlinear-Pattern-Formation-Systems/dp/3838364228 Book]
* R. Guantes, J. Estrada and J. F. Poyatos, "Trade-offs and noise tolerance in signal detection by genetic circuits", PLoS ONE '''5''', e12314 (2010)
* R. Guantes, J. Estrada and J. F. Poyatos, "Trade-offs and noise tolerance in signal detection by genetic circuits", PLoS ONE '''5''', e12314 (2010)
'''2009'''
'''2009'''
-
* D. G. Míguez, P. McGraw, A. P. Muñuzuri and M. Menzinger, "Selection of Flow-Distributed Oscillation and Turing Patterns by Boundary Forcing in a Linearly Growing, Oscillating Medium", Phys. Rev. E, '''80''', 026208 (2009).
+
* D. G. Míguez, P. McGraw, A. P. Muñuzuri and M. Menzinger, ''[http://pre.aps.org/abstract/PRE/v80/i2/e026208 Selection of Flow-Distributed Oscillation and Turing Patterns by Boundary Forcing in a Linearly Growing, Oscillating Medium]'', Phys. Rev. E, '''80''', 026208 (2009).
'''2008'''
'''2008'''
-
* I. A. Swinburne, D. G. Míguez, D. Landgraf, and P. A. Silver, "Intron length increases oscillatory periods of gene expression in animal cells", Genes & Dev., '''22''' 2008, 2342-2346 (2008).
+
* I. A. Swinburne, D. G. Míguez, D. Landgraf, and P. A. Silver, ''[http://genesdev.cshlp.org/content/22/17/2342.full Intron length increases oscillatory periods of gene expression in animal cells]'', Genes & Dev., '''22''' 2008, 2342-2346 (2008).
-
* S. Alonso, D. G. Míguez, F. Sagués, “Differential susceptibility to noise of mixed Turing and Hopf modes in a photosensitive chemical medium”, Europhys. Lett, '''81''', 30006 (2008).  
+
* S. Alonso, D. G. Míguez, F. Sagués, ''[http://iopscience.iop.org/0295-5075/81/3/30006 Differential susceptibility to noise of mixed Turing and Hopf modes in a photosensitive chemical medium]'', Europhys. Lett, '''81''', 30006 (2008).  
* R. Guantes and J. F. Poyatos, "Multistable decision switches for flexible control of epigenetic differentiation", PLoS Computational Biology '''4''', e1000235 (2008)
* R. Guantes and J. F. Poyatos, "Multistable decision switches for flexible control of epigenetic differentiation", PLoS Computational Biology '''4''', e1000235 (2008)
'''2007'''
'''2007'''
-
* D. G. Míguez, V. K. Vanag, I. R. Epstein, “Fronts and pulses in an enzymatic reaction with glucose oxidase" P.N.A.S. '''104''', 6992 (2007).
+
* D. G. Míguez, V. K. Vanag, I. R. Epstein, ''[http://www.pnas.org/content/104/17/6992.full Fronts and pulses in an enzymatic reaction with glucose oxidase]'' P.N.A.S. '''104''', 6992 (2007).
* S. Arganda, R. Guantes and G. G. de Polavieja, "Sodium pumps adapt spike bursting to stimulus statistics", Nature Neuroscience '''10''', 1467-1473 (2007).  
* S. Arganda, R. Guantes and G. G. de Polavieja, "Sodium pumps adapt spike bursting to stimulus statistics", Nature Neuroscience '''10''', 1467-1473 (2007).  
'''2006'''
'''2006'''
-
* V. K. Vanag, D.G. Míguez, I. R. Epstein, “Designing an Enzymatic Oscillator: Bistability and Feedback Control led Oscillations with Glucose Oxidase in a CSTR”, J. Phys. Chem. '''125''', 194515 (2006).
+
* V. K. Vanag, D.G. Míguez, I. R. Epstein, ''[http://jcp.aip.org/resource/1/jcpsa6/v125/i19/p194515_s1 Designing an Enzymatic Oscillator: Bistability and Feedback Control led Oscillations with Glucose Oxidase in a CSTR]'', J. Phys. Chem. '''125''', 194515 (2006).
-
* D.G. Míguez, S. Alonso, A.P. Muñuzuri, F. Sagués, “Turing patterns of oscillating spots”, Phys. Rev. Lett, '''97''', 178301 (2006).  
+
* D.G. Míguez, S. Alonso, A.P. Muñuzuri, F. Sagués, ''[http://prl.aps.org/abstract/PRL/v97/i17/e178301 Experimental evidence of localized oscillations in the photosensitive chlorine dioxide-iodine-malonic acid reaction]'', Phys. Rev. Lett, '''97''', 178301 (2006).  
-
* D. G. Míguez, A. P. Muñuzuri,“On the orientation of stripes in fish skin patterning”, Biophys. Chem. '''124''', 161 (2006).  
+
* D. G. Míguez, A. P. Muñuzuri, ''[http://www.sciencedirect.com/science/article/pii/S0301462206002122 On the orientation of stripes in fish skin patterning]'', Biophys. Chem. '''124''', 161 (2006).  
-
* D. G. Míguez, R. A. Satnoianu, A. P. Muñuzuri, "Experimental steady pattern formation in reaction-diffusion-advection systems", Phys. Rev. E '''73''', 025201 (R) (2006).
+
* D. G. Míguez, R. A. Satnoianu, A. P. Muñuzuri, ''[http://pre.aps.org/abstract/PRE/v73/i2/e025201 Experimental steady pattern formation in reaction-diffusion-advection systems]'', Phys. Rev. E '''73''', 025201 (R) (2006).
-
* D. G. Míguez, M. Dolnik, A. P. Muñuzuri, L. Kramer, "Effect of Axial Growth on Turing Pattern Formation".  Phys. Rev. Lett '''96''', 048304 (2006).
+
* D. G. Míguez, M. Dolnik, A. P. Muñuzuri, L. Kramer, ''[http://prl.aps.org/abstract/PRL/v96/i4/e048304 Effect of Axial Growth on Turing Pattern Formation]''.  Phys. Rev. Lett '''96''', 048304 (2006).
-
* D. G. Míguez, G. Izús, A. P. Muñuzuri, "Robustness and Stability of Flow-and-Diffusion Structures", Phys. Rev. E '''73''', 016207 (2006).
+
* D. G. Míguez, G. Izús, A. P. Muñuzuri, ''[http://pre.aps.org/abstract/PRE/v73/i1/e016207 Robustness and Stability of Flow-and-Diffusion Structures]'', Phys. Rev. E '''73''', 016207 (2006).
* R. Guantes and J. F. Poyatos, "Dynamical principles of two-component genetic oscillators", PLoS Computational Biology '''2''', e30 (2006).
* R. Guantes and J. F. Poyatos, "Dynamical principles of two-component genetic oscillators", PLoS Computational Biology '''2''', e30 (2006).
'''2005'''
'''2005'''
-
* D. G. Miguez, V. Perez-Villar, and A. P. Munuzuri, "Turing instability controlled by spatiotemporal imposed dynamics", Phys. Rev. E '''71''', 066217 (2005).
+
* D. G. Miguez, V. Perez-Villar, and A. P. Munuzuri, ''[http://pre.aps.org/abstract/PRE/v71/i6/e066217 Turing instability controlled by spatiotemporal imposed dynamics]'', Phys. Rev. E '''71''', 066217 (2005).
* R. Guantes and G. G. de Polavieja, "Variability in noise-driven integrator neurons", Physical Review E '''71''', 011911 (2005).
* R. Guantes and G. G. de Polavieja, "Variability in noise-driven integrator neurons", Physical Review E '''71''', 011911 (2005).
* S. C. Farantos, S. Stamatiadis, L. Lathouwers and R. Guantes, "Grid enabled molecular dynamics: classical and quantum algorithms", Lecture Series on Computer and Computational Sciences '''1''', 1-16 (2005).  
* S. C. Farantos, S. Stamatiadis, L. Lathouwers and R. Guantes, "Grid enabled molecular dynamics: classical and quantum algorithms", Lecture Series on Computer and Computational Sciences '''1''', 1-16 (2005).  
'''2004'''
'''2004'''
-
* F. Sagués, D. G. Míguez, E. M. Nicola, A. P. Muñuzuri, J. Casademunt, L. Kramer, "Spatio-Temporal Forcing of Turing Patterns", Physica D '''199''', 235 (2004) .
+
* F. Sagués, D. G. Míguez, E. M. Nicola, A. P. Muñuzuri, J. Casademunt, L. Kramer, ''[http://www.sciencedirect.com/science/article/pii/S0167278904003197 Travelling-stripe forcing of Turing patterns]'', Physica D '''199''', 235 (2004).
-
* D. G. Míguez, E. M. Nicola, A. P. Muñuzuri, J. Casademunt, F. Sagués, L. Kramer, "Traveling-Stripe Forcing Generates Hexagonal Patterns", Phys. Rev. Lett. '''93''', 048303 (2004) .
+
* D. G. Míguez, E. M. Nicola, A. P. Muñuzuri, J. Casademunt, F. Sagués, L. Kramer, ''[http://prl.aps.org/abstract/PRL/v93/i4/e048303 Traveling-Stripe Forcing Generates Hexagonal Patterns]'', Phys. Rev. Lett. '''93''', 048303 (2004).
-
* M. Kærn, D. G. Míguez, A. P. Muñuzuri, M. Menzinger, "Control of chemical pattern formation by a clock-and-wavefront type mechanism", Biophys. Chem. '''110''', 231 (2004). '''Shared 1st authorship'''.
+
* M. Kærn, D. G. Míguez, A. P. Muñuzuri, M. Menzinger, ''[http://www.sciencedirect.com/science/article/pii/S030146220400078X Control of chemical pattern formation by a clock-and-wavefront type mechanism]'', Biophys. Chem. '''110''', 231 (2004). '''Shared 1st authorship'''.
* S. Sengupta, R. Guantes, S. Miret-Artés and P. Hänggi, "Controlling directed transport in two-dimensional periodic structures under crossed electric fields", Physica A '''338''', 406 (2004).
* S. Sengupta, R. Guantes, S. Miret-Artés and P. Hänggi, "Controlling directed transport in two-dimensional periodic structures under crossed electric fields", Physica A '''338''', 406 (2004).
* R. Guantes, A. S. Sanz, J. Margalef-Roig and S. Miret-Artés, "Atom-surface diffraction: a trajectory description", Surface Science Reports '''53''', 199-330 (2004).  
* R. Guantes, A. S. Sanz, J. Margalef-Roig and S. Miret-Artés, "Atom-surface diffraction: a trajectory description", Surface Science Reports '''53''', 199-330 (2004).  
Line 62: Line 71:
* J. L. Vega, R. Guantes, S. Miret-Artés and D. A. Micha, "Collisional lineshapes for low frequency vibrations of an atom adsorbed on a metal surface", Journal of Chemical Physics '''121''', 8580 (2004)
* J. L. Vega, R. Guantes, S. Miret-Artés and D. A. Micha, "Collisional lineshapes for low frequency vibrations of an atom adsorbed on a metal surface", Journal of Chemical Physics '''121''', 8580 (2004)
'''2003'''
'''2003'''
-
* B. Peña, C. Pérez-García, A. Sanz-Anchelergues, "Transverse instabilities in chemical Turing patterns of stripes", D. G. Míguez, A. P. Muñuzuri, Phys. Rev. E '''68''', 056206 (2003) .
+
* B. Peña, C. Pérez-García, A. Sanz-Anchelergues, D. G. Míguez, A. P. Muñuzuri, ''[http://pre.aps.org/abstract/PRE/v68/i5/e056206 Transverse instabilities in chemical Turing patterns of stripes]'',  Phys. Rev. E '''68''', 056206 (2003).
-
* S. Rüdiger, D. G. Míguez, A. P. Muñuzuri, F. Sagués, J. Casademunt, "Dynamics of Turing Patterns under Spatiotemporal Forcing", Phys. Rev. Lett '''90''', 128301 (2003).
+
* S. Rüdiger, D. G. Míguez, A. P. Muñuzuri, F. Sagués, J. Casademunt, ''[http://prl.aps.org/abstract/PRL/v90/i12/e128301 Dynamics of Turing Patterns under Spatiotemporal Forcing]'', Phys. Rev. Lett '''90''', 128301 (2003).
* R. Guantes and S. Miret-Artés, "Chaotic transport of particles in two-dimensional periodic potentials driven by ac forces", Physical Review E '''67''', 046212 (2003).
* R. Guantes and S. Miret-Artés, "Chaotic transport of particles in two-dimensional periodic potentials driven by ac forces", Physical Review E '''67''', 046212 (2003).
* R. Guantes, J. L. Vega, S. Miret-Artés and Eli Pollak, "Kramers' turnover theory for diffusion of Na atoms on a Cu(001) surface measured by He scattering", Journal of Chemical Physics '''119''', 2780 (2003).  
* R. Guantes, J. L. Vega, S. Miret-Artés and Eli Pollak, "Kramers' turnover theory for diffusion of Na atoms on a Cu(001) surface measured by He scattering", Journal of Chemical Physics '''119''', 2780 (2003).  

Current revision

   

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Publications

2014

2013

2012

  • R. Guantes, B. Cayrol, F. Busi and V. Arluison, "Positive Regulatory Dynamics by a small noncoding RNA: Speeding Up Responses Under Temperature Stress", Molecular Biosystems 8 , 1707-1715 (2012).
  • Florian Gnad , Javier Estrada and Jeremy Gunawardena , "Proteus: a web-based, context-specific modelling tool for molecular networks", Bioinformatics 28, 1284 - 1286 (2012).
  • V. Doldán-Martelli, D. G. Míguez, Theoretical Approaches to Growth Hormone Signaling, in 'Growth Hormones: Synthesis, Regulation and Health Implications', Eds. A. Andersdtr and J. Anderssen Nova Publishers ISBN 978-1-61942-681-8 (2012).

2011

2010

2009

2008

2007

2006

2005

  • D. G. Miguez, V. Perez-Villar, and A. P. Munuzuri, Turing instability controlled by spatiotemporal imposed dynamics, Phys. Rev. E 71, 066217 (2005).
  • R. Guantes and G. G. de Polavieja, "Variability in noise-driven integrator neurons", Physical Review E 71, 011911 (2005).
  • S. C. Farantos, S. Stamatiadis, L. Lathouwers and R. Guantes, "Grid enabled molecular dynamics: classical and quantum algorithms", Lecture Series on Computer and Computational Sciences 1, 1-16 (2005).

2004

  • F. Sagués, D. G. Míguez, E. M. Nicola, A. P. Muñuzuri, J. Casademunt, L. Kramer, Travelling-stripe forcing of Turing patterns, Physica D 199, 235 (2004).
  • D. G. Míguez, E. M. Nicola, A. P. Muñuzuri, J. Casademunt, F. Sagués, L. Kramer, Traveling-Stripe Forcing Generates Hexagonal Patterns, Phys. Rev. Lett. 93, 048303 (2004).
  • M. Kærn, D. G. Míguez, A. P. Muñuzuri, M. Menzinger, Control of chemical pattern formation by a clock-and-wavefront type mechanism, Biophys. Chem. 110, 231 (2004). Shared 1st authorship.
  • S. Sengupta, R. Guantes, S. Miret-Artés and P. Hänggi, "Controlling directed transport in two-dimensional periodic structures under crossed electric fields", Physica A 338, 406 (2004).
  • R. Guantes, A. S. Sanz, J. Margalef-Roig and S. Miret-Artés, "Atom-surface diffraction: a trajectory description", Surface Science Reports 53, 199-330 (2004).
  • R. Guantes, J. L. Vega, S. Miret-Artés and Eli Pollak, "Hamiltonian theory for vibrational lineshapes of atoms adsorbed on surfaces", Journal of Chemical Physics 120, 10768 (2004).
  • J. L. Vega, R. Guantes and S. Miret-Artés, "Quasielastic and low vibrational lineshapes in atom-surface diffusion", Journal of Physics: Condensed Matter 16, S2879 (2004).
  • J. L. Vega, R. Guantes, S. Miret-Artés and D. A. Micha, "Collisional lineshapes for low frequency vibrations of an atom adsorbed on a metal surface", Journal of Chemical Physics 121, 8580 (2004)

2003

  • B. Peña, C. Pérez-García, A. Sanz-Anchelergues, D. G. Míguez, A. P. Muñuzuri, Transverse instabilities in chemical Turing patterns of stripes, Phys. Rev. E 68, 056206 (2003).
  • S. Rüdiger, D. G. Míguez, A. P. Muñuzuri, F. Sagués, J. Casademunt, Dynamics of Turing Patterns under Spatiotemporal Forcing, Phys. Rev. Lett 90, 128301 (2003).
  • R. Guantes and S. Miret-Artés, "Chaotic transport of particles in two-dimensional periodic potentials driven by ac forces", Physical Review E 67, 046212 (2003).
  • R. Guantes, J. L. Vega, S. Miret-Artés and Eli Pollak, "Kramers' turnover theory for diffusion of Na atoms on a Cu(001) surface measured by He scattering", Journal of Chemical Physics 119, 2780 (2003).


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